genome.fa.s8955.2.7.7.80.10.50.1000.20.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01008955.1 Hibiscus syriacus cultivar Beakdansim tig00112285_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4658001

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  20  of  23  ( 2731 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3958627--3958748	19	7.1	17	76	16	71	8	18	0	72	1.15
3958717--3958754	10	3.8	10	86	10	51	7	18	0	73	1.06
3958710--3958748	9	4.3	9	84	9	53	5	17	0	76	0.96
3971781--3971952	35	4.8	36	80	12	162	44	8	5	42	1.56
3971781--3971952	34	4.8	34	82	12	186	44	8	5	42	1.56
3971809--3971996	72	2.6	72	86	9	244	45	8	4	41	1.54
3971929--3971953	12	2.1	12	100	0	50	44	8	8	40	1.63
3971809--3972040	34	6.5	33	75	15	155	47	6	3	41	1.47
3971809--3972040	72	3.2	72	83	11	223	47	6	3	41	1.47
3972004--3972032	11	2.5	12	88	11	51	65	0	0	34	0.93
3975855--3975898	20	2.3	20	88	7	65	40	0	0	59	0.98
3976247--3976371	50	2.5	50	85	3	162	17	35	30	16	1.93
3976483--3976523	10	4.1	10	84	12	57	31	29	0	39	1.57
3978708--3978769	3	20.7	3	89	0	97	35	29	32	3	1.73
3982519--3982641	49	2.5	51	89	5	180	27	22	24	25	2.00
3982653--3982766	50	2.3	50	82	1	129	20	28	30	20	1.97
3994100--3994218	59	2.0	59	91	0	193	31	22	10	36	1.87
3994835--3994888	20	2.7	20	77	11	74	27	29	14	27	1.95
3994876--3994923	21	2.3	21	78	3	62	33	20	18	27	1.96
3994917--3994956	20	2.0	20	85	9	55	42	25	17	15	1.88
3995077--3995134	22	2.6	22	77	0	71	24	36	13	25	1.92
3997638--3997690	20	2.6	21	78	6	63	22	33	26	16	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4005977--4006016	21	1.9	21	85	10	55	35	10	2	52	1.48
4008707--4008746	14	2.9	14	80	0	53	30	0	17	52	1.45
4008657--4008796	66	2.2	60	86	7	181	31	0	17	50	1.51
4008855--4008944	20	4.8	20	69	20	86	40	23	20	16	1.91
4009149--4009235	39	2.2	39	93	0	147	19	14	18	47	1.83
4009481--4009532	11	4.5	11	77	13	59	44	13	9	32	1.76
4009492--4009547	25	2.2	25	93	0	94	42	17	8	30	1.80
4009997--4010032	18	2.0	18	100	0	72	16	0	27	55	1.42
4010724--4010749	12	2.2	12	100	0	52	53	23	0	23	1.46
4012309--4012360	24	2.2	23	86	6	77	42	17	19	21	1.89
4012485--4012518	12	2.8	12	95	0	59	14	0	26	58	1.36
4013001--4013209	76	2.8	77	88	2	289	24	31	23	20	1.98
4018881--4018966	21	4.0	21	72	11	68	23	37	24	15	1.93
4020887--4020934	17	2.9	17	80	17	57	14	0	27	58	1.37
4021519--4021727	75	2.8	76	87	2	278	24	31	22	21	1.98
4022932--4023091	20	7.9	20	69	12	69	31	14	21	32	1.93
4026220--4026330	55	2.0	55	92	0	186	33	13	8	45	1.73
4027626--4027690	3	21.7	3	81	6	78	40	0	0	60	0.97
4027696--4027747	26	2.0	26	92	0	86	46	26	17	9	1.79
4030002--4030053	16	3.2	16	86	10	63	23	1	0	75	0.91
4032325--4032365	7	5.9	7	83	11	57	14	17	9	58	1.62
4036329--4036546	114	1.9	114	89	1	339	30	16	20	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4037653--4037829	76	2.3	76	80	7	198	31	18	22	27	1.97
4039163--4039216	22	2.5	21	87	3	81	37	11	12	38	1.79
4039890--4040680	76	10.4	76	97	0	1438	24	19	22	34	1.96
4040838--4040902	3	21.7	3	81	6	78	40	0	0	60	0.97
4040909--4040963	26	2.1	26	89	0	83	43	30	16	9	1.79
4043691--4043722	1	32.0	1	100	0	64	100	0	0	0	0.00
4045200--4045324	30	4.2	31	79	6	109	19	13	9	57	1.63
4045192--4045341	60	2.5	60	76	9	146	21	14	8	56	1.65
4046302--4046401	6	16.7	6	86	4	51	41	27	7	25	1.81
4046308--4046371	18	3.6	18	91	0	92	39	29	10	20	1.87
4046321--4046395	18	4.2	18	86	3	89	38	28	9	24	1.86
4046368--4046469	6	17.3	6	80	4	73	45	17	8	28	1.78
4046380--4046489	18	6.2	18	80	4	80	45	15	12	26	1.82
4046678--4046882	6	34.2	6	77	0	122	32	14	17	36	1.90
4046494--4047096	18	33.2	18	86	3	431	32	16	16	34	1.92
4046494--4047186	36	19.1	36	85	4	431	34	16	14	34	1.90
4046704--4047952	6	210.3	6	89	5	1599	45	16	4	32	1.69
4049712--4049811	4	23.2	4	75	22	71	75	3	1	21	1.00
4049745--4049804	26	2.3	26	79	0	66	73	5	1	20	1.11
4049717--4049811	5	19.6	5	75	14	67	74	3	1	21	1.01
4051150--4051571	105	4.0	106	86	5	581	22	18	25	33	1.96
4052206--4052656	65	6.7	65	72	12	275	37	11	20	30	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4052338--4052598	36	7.4	36	78	10	263	39	13	19	27	1.89
4052350--4052461	37	3.1	36	84	3	127	41	15	19	23	1.89
4052480--4052598	37	3.3	36	90	4	188	39	13	21	26	1.90
4052275--4052646	136	2.7	137	83	2	469	38	12	20	28	1.89
4053019--4053054	18	2.0	18	88	0	54	41	30	8	19	1.81
4053458--4053512	22	2.5	22	90	0	92	25	14	25	34	1.94
4054136--4054235	25	3.7	26	80	12	105	1	14	7	78	1.01
4054141--4054212	28	2.8	26	84	14	87	1	15	6	76	1.06
4054134--4054237	26	4.0	25	77	14	88	0	13	6	78	0.99
4054197--4054243	20	2.5	19	80	16	53	0	12	4	82	0.80
4057242--4057336	4	22.2	4	72	25	54	74	3	1	21	1.01
4057247--4057320	5	15.4	5	78	10	66	74	4	1	20	1.06
4058795--4059788	492	2.0	496	98	1	1915	39	10	11	38	1.75
4061387--4061634	105	2.4	105	88	1	381	32	13	26	27	1.94
4063355--4063402	24	2.0	24	87	0	69	47	16	14	20	1.82
4065451--4065536	43	2.0	43	100	0	172	32	16	18	32	1.93
4067112--4067162	26	2.0	26	92	7	86	15	39	19	25	1.91
4067115--4067168	13	4.2	13	78	4	56	14	37	22	25	1.93
4068464--4068499	18	2.0	18	88	0	54	52	0	16	30	1.44
4069087--4069122	18	2.0	18	88	0	54	52	0	16	30	1.44
4070173--4070228	24	2.3	23	73	8	58	21	16	16	46	1.84
4070190--4070283	48	2.0	48	82	4	118	21	13	14	50	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4070211--4070283	24	3.0	24	70	7	67	20	10	15	53	1.71
4070238--4070279	12	3.5	12	84	9	50	16	14	14	54	1.71
4072965--4073028	10	6.1	10	80	10	74	60	18	9	10	1.56
4072975--4073039	33	2.0	32	87	3	94	61	21	7	9	1.51
4073276--4073335	14	4.1	14	89	4	84	55	15	13	16	1.70
4086528--4086590	33	1.9	33	90	0	99	47	15	9	26	1.76
4087532--4087566	14	2.5	14	90	0	61	28	17	28	25	1.97
4090434--4090468	17	2.1	17	94	5	63	31	2	0	65	1.07
4090487--4090538	24	2.2	24	83	13	63	34	23	0	42	1.54
4090734--4090830	31	3.3	28	80	9	113	53	8	1	37	1.38
4093900--4093933	14	2.4	14	90	9	52	32	44	20	2	1.67
4095212--4095259	2	24.5	2	81	12	55	41	0	2	56	1.11
4101234--4101262	8	3.8	8	90	9	51	79	0	20	0	0.74
4106506--4106619	45	2.5	45	84	2	129	26	21	18	33	1.96
4106557--4106769	76	2.8	76	90	1	331	26	22	19	31	1.98
4106453--4106695	121	2.0	123	86	1	346	27	21	18	31	1.97
4106703--4106797	45	2.1	45	90	0	145	27	22	18	31	1.97
4106957--4107028	37	1.9	38	88	2	110	54	1	0	44	1.08
4107058--4107091	15	2.3	15	95	5	61	32	44	20	2	1.67
4108689--4108848	65	2.5	63	87	6	223	30	24	18	26	1.98
4108820--4108868	19	2.6	19	84	9	57	24	28	20	26	1.99
4115073--4115110	19	2.0	20	94	5	69	36	5	15	42	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4115092--4115179	26	3.4	26	66	17	74	32	5	12	48	1.64
4115072--4115199	52	2.5	52	92	5	208	33	5	13	47	1.65
4115125--4115163	20	2.0	20	85	10	53	35	5	12	46	1.65
4117705--4117900	98	2.0	96	97	2	365	32	19	17	30	1.95
4132464--4132583	17	7.1	18	74	16	80	75	0	19	5	1.04
4132467--4132583	18	6.4	17	76	16	92	75	0	18	5	1.04
4132499--4132543	21	2.1	21	88	8	65	80	2	13	4	0.97
4132469--4132579	57	1.9	58	82	10	138	74	0	18	5	1.06
4132467--4132589	9	13.3	9	69	13	63	74	0	18	5	1.06
4133902--4134317	51	8.0	51	87	4	537	29	16	26	28	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23